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ChromoViz: multimodal visualization of gene expression data onto chromosomes using scalable vector graphics
Jihoon Kim1, Hee-Joon Chung, Chan Hee Park
1Seoul National University Biomedical Informatics (SNUBI), Seoul National University College of Medicine, Seoul 110-799, Republic of Korea.
Bioinformatics (Oxford, England)
|February 7, 2004
Summary
ChromoViz is a new R package for visualizing genomic data, including gene expression, across different platforms and species. It offers interactive, web-based chromosomal maps for exploring diverse biological datasets.
Area of Science:
- Bioinformatics
- Genomics
- Data Visualization
Background:
- Gene expression data and other genomic data are often complex and heterogeneous.
- Existing visualization tools may lack cross-platform and cross-species comparison capabilities.
- Public databases provide a wealth of genomic data requiring effective visualization methods.
Purpose of the Study:
- To introduce ChromoViz, an R package designed for comprehensive genomic data visualization.
- To enable visualization of microarray gene expression data and non-expression genomic data.
- To facilitate cross-species and cross-platform comparisons of genomic information.
Main Methods:
- Development of an R package named ChromoViz.
- Implementation of a chromosomal visualization format.
- Utilizing Javascript-enabled Scalable Vector Graphics (SVG) for interactive web-based visualizations.
Main Results:
- ChromoViz allows visualization of gene expression and non-expression genomic data on chromosomes.
- The package supports cross-species and cross-platform data comparisons.
- Interactive and navigable visualizations are generated for web-based exploration.
Conclusions:
- ChromoViz provides a novel approach for visualizing diverse genomic data on a chromosomal scale.
- The proposed format effectively decouples data and procedure layers for combined visualization.
- Interactive web-based visualization enhances the exploration of heterogeneous genomic datasets.